[pre-commit.ci] pre-commit autoupdate

.pre-commit-config.yaml

@@ -7,7 +7,7 @@ ci:
 
 repos:
   - repo: https://github.com/lorenzwalthert/precommit
-    rev: v0.4.3.9017
+    rev: v0.4.3.9020
     hooks:
       - id: parsable-R
       - id: no-browser-statement
@@ -45,19 +45,19 @@ repos:
         exclude: '(\.Rd|python/doc/source/reference/.*|test-doctest-.*)'
 
   - repo: https://github.com/tox-dev/tox-ini-fmt
-    rev: "1.7.0"
+    rev: "1.7.1"
     hooks:
       - id: tox-ini-fmt
 
   - repo: https://github.com/tox-dev/pyproject-fmt
-    rev: "v2.11.0"
+    rev: "v2.16.0"
     hooks:
       - id: pyproject-fmt
         additional_dependencies: ["tox>=4.12.1"]
 
   - repo: https://github.com/astral-sh/ruff-pre-commit
     # Ruff version.
-    rev: v0.14.3
+    rev: v0.15.1
     hooks:
       # Run the formatter.
       - id: ruff-format
@@ -69,6 +69,6 @@ repos:
         require_serial: true
 
   - repo: https://github.com/sphinx-contrib/sphinx-lint
-    rev: v1.0.1
+    rev: v1.0.2
     hooks:
       - id: sphinx-lint

python/benchmarks/bench_hv.py

@@ -79,8 +79,9 @@
         "moarchiving (float)": lambda z, ref=ref: float(
             moarch_get_mo_archive(z, reference_point=ref).hypervolume
         ),
-        "botorch": lambda z,
-        hv=botorch_HV(ref_point=torch.from_numpy(-ref)): hv.compute(z),
+        "botorch": lambda z, hv=botorch_HV(ref_point=torch.from_numpy(-ref)): (
+            hv.compute(z)
+        ),
         "fast_pareto": lambda z, ref=ref: fp_hv(
             z, ref_point=ref, assume_pareto=False
         ),

python/pyproject.toml

@@ -20,11 +20,6 @@ keywords = [
 ]
 license = "LGPL-2.1-or-later"
 license-files = [ "COPYRIGHTS" ]
-authors = [
-  { name = "Manuel López-Ibáñez", email = "manuel.lopez-ibanez@manchester.ac.uk" },
-  { name = "Fergus Rooney", email = "fergus.rooney@outlook.com" },
-  { name = "Lennart Schäpermeier", email = "lennart.schaepermeier@uni-muenster.de" },
-]
 requires-python = ">=3.10"
 classifiers = [
   "Intended Audience :: Science/Research",
@@ -41,8 +36,17 @@ dependencies = [
   "numpy>=1.24",
   "platformdirs",
 ]
-
-optional-dependencies.benchmarks = [
+[[project.authors]]
+name = "Manuel López-Ibáñez"
+email = "manuel.lopez-ibanez@manchester.ac.uk"
+[[project.authors]]
+name = "Fergus Rooney"
+email = "fergus.rooney@outlook.com"
+[[project.authors]]
+name = "Lennart Schäpermeier"
+email = "lennart.schaepermeier@uni-muenster.de"
+[project.optional-dependencies]
+benchmarks = [
   "botorch",
   "desdeo",
   "fast-pareto",
@@ -59,13 +63,12 @@ optional-dependencies.benchmarks = [
   "pymoo",
   "seqme",
 ]
-
-optional-dependencies.coverage = [
+coverage = [
   "coverage[toml]",
   "gcovr",
 ]
-optional-dependencies.dev = [ "pre-commit>=3.3.2", "ruff>=0.11.2", "tox>=4.6.2" ]
-optional-dependencies.docs = [
+dev = [ "pre-commit>=3.3.2", "ruff>=0.11.2", "tox>=4.6.2" ]
+docs = [
   "ipykernel",
   "ipywidgets",
   "jupyter",
@@ -83,19 +86,19 @@ optional-dependencies.docs = [
   "sphinxcontrib-bibtex",
   "sphinxcontrib-napoleon",
 ]
-optional-dependencies.test = [
+test = [
   "pandas>=2",
   "pytest>7",
 ]
-urls.Documentation = "https://multi-objective.github.io/moocore/python/"
-urls.Homepage = "https://multi-objective.github.io/moocore/python/"
-urls.Source = "https://github.com/multi-objective/moocore/"
-urls.Tracker = "https://github.com/multi-objective/moocore/issues"
+[project.urls]
+Documentation = "https://multi-objective.github.io/moocore/python/"
+Homepage = "https://multi-objective.github.io/moocore/python/"
+Source = "https://github.com/multi-objective/moocore/"
+Tracker = "https://github.com/multi-objective/moocore/issues"
 
 [tool.setuptools]
 zip-safe = false
 package-dir = { "" = "src" }
-
 [tool.setuptools.package-data]
 "*" = [ "*.c", "*.h" ]
 "moocore.data" = [ "*.txt", "*.dat", "*.xz", "*.csv", "*.10" ]
@@ -116,8 +119,7 @@ test-extras = [ "test" ]
 test-command = [
   "pytest --doctest-modules --doctest-continue-on-failure {package}/tests {package}/src/moocore/_moocore.py",
 ]
-#test-skip = "*-*linux_{aarch64,ppc64le,s390x}"
-
+# test-skip = "*-*linux_{aarch64,ppc64le,s390x}"
 [tool.cibuildwheel.linux]
 archs = [ "native" ]
 manylinux-x86_64-image = "manylinux_2_28"
@@ -130,7 +132,13 @@ repair-wheel-command = [
   "auditwheel repair -w {dest_dir} {wheel}",
   "abi3audit --verbose --strict --report {wheel}",
 ]
-
+[tool.cibuildwheel.macos]
+archs = [ "universal2" ]
+before-build = "pip install abi3audit"
+repair-wheel-command = [
+  "delocate-wheel --require-archs {delocate_archs} -w {dest_dir} -v {wheel}",
+  "abi3audit --verbose --strict --report {wheel}",
+]
 [tool.cibuildwheel.windows]
 archs = [ "native" ]
 # Use delvewheel on windows
@@ -140,19 +148,13 @@ repair-wheel-command = [
   "abi3audit --verbose --strict --report {wheel}",
 ]
 
-[tool.cibuildwheel.macos]
-archs = [ "universal2" ]
-before-build = "pip install abi3audit"
-repair-wheel-command = [
-  "delocate-wheel --require-archs {delocate_archs} -w {dest_dir} -v {wheel}",
-  "abi3audit --verbose --strict --report {wheel}",
-]
-
 [tool.ruff]
 line-length = 80
-format.docstring-code-line-length = 80
-format.docstring-code-format = true
-lint.extend-select = [
+[tool.ruff.format]
+docstring-code-line-length = 80
+docstring-code-format = true
+[tool.ruff.lint]
+extend-select = [
   "D",    # pydocstyle
   "D402", # no-signature
   "D415", # ends-in-punctuation
@@ -163,31 +165,27 @@ lint.extend-select = [
   "RUF",
   "UP",
 ]
-lint.ignore = [
+ignore = [
   "D203", # one-blank-line-before-class
   "D213", # multi-line-summary-second-line
 ]
-
-lint.extend-per-file-ignores."*benchmarks*/*.py" = [
+extend-per-file-ignores."*benchmarks*/*.py" = [
   "D",
   "N806", # non-lowercase-variable-in-function
   "N813",
 ]
-
-lint.extend-per-file-ignores."*examples*/*.py" = [
+extend-per-file-ignores."*examples*/*.py" = [
   "D205", # 1 blank line required between summary line and description
   "D400", # First line should end with a period
-  "D415", #  First line should end with a period, question mark, or exclamation point
+  "D415", # First line should end with a period, question mark, or exclamation point
   "E402", # Module level import not at top of file
 ]
-
-lint.extend-per-file-ignores."*tests*/*.py" = [
+extend-per-file-ignores."*tests*/*.py" = [
   "N806", # non-lowercase-variable-in-function
 ]
-
-lint.pycodestyle.max-doc-length = 80
-lint.pycodestyle.max-line-length = 80
-lint.pydocstyle.convention = "numpy"
+pycodestyle.max-doc-length = 80
+pycodestyle.max-line-length = 80
+pydocstyle.convention = "numpy"
 
 [tool.pyproject-fmt]
 # Table format: "short" collapses sub-tables to dotted keys, "long" expands to [table.subtable] headers
@@ -200,10 +198,10 @@ addopts = [ "--import-mode=importlib", "--durations=5", "--durations-min=1.0" ]
 
 [tool.coverage.report]
 exclude_also = [
-  '.*(?:#|//)\s+nocov',
-  '.* ASSUME\s?\(.+\);',
-  '.* unreachable\s?\(\);',
-  '.*(?:GCOVR?|LCOV)_EXCL_LINE',
+  ".*(?:#|//)\\s+nocov",
+  ".* ASSUME\\s?\\(.+\\);",
+  ".* unreachable\\s?\\(\\);",
+  ".*(?:GCOVR?|LCOV)_EXCL_LINE",
 ]
 
 [tool.mypy]
@@ -226,8 +224,8 @@ files = [ "src/" ]
 
 [tool.gcovr]
 exclude-lines-by-pattern = [
-  '.*(?:#|//)\s+nocov',
-  '.* ASSUME\s?\(.+\);',
-  '.* unreachable\s?\(\);',
-  '.*(?:GCOVR?|LCOV)_EXCL_LINE',
+  ".*(?:#|//)\\s+nocov",
+  ".* ASSUME\\s?\\(.+\\);",
+  ".* unreachable\\s?\\(\\);",
+  ".*(?:GCOVR?|LCOV)_EXCL_LINE",
 ]